<emd emdb_id="EMD-1415" version="3.0.1.1" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_1/emdb_relaxed.xsd">
    <admin>
        <current_status>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2007-08-30</deposition>
            <header_release>2007-08-30</header_release>
            <map_release>2007-08-30</map_release>
            <update>2013-12-11</update>
        </key_dates>
        <title>Cryo-EM study of the Pseudomonas bacteriophage phiKZ.</title>
        <authors_list>
            <author>Fokine A</author>
            <author>Battisti A</author>
            <author>Bowman V</author>
            <author>Efimov A</author>
            <author>Kurochkina L</author>
            <author>Chipman P</author>
            <author>Mesyanzhinov V</author>
            <author>Rossmann M</author>
        </authors_list>
        <keywords />
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Fokine A</author>
                    <author order="2">Battisti AJ</author>
                    <author order="3">Bowman VD</author>
                    <author order="4">Efimov AV</author>
                    <author order="5">Kurochkina LP</author>
                    <author order="6">Chipman PR</author>
                    <author order="7">Mesyanzhinov VV</author>
                    <author order="8">Rossmann MG</author>
                    <title>Cryo-EM study of the Pseudomonas bacteriophage phiKZ.</title>
                    <journal>STRUCTURE</journal>
                    <volume>15</volume>
                    <first_page>1099</first_page>
                    <last_page>1104</last_page>
                    <year>2007</year>
                    <external_references type="PUBMED">17850749</external_references>
                    <external_references type="DOI">doi:10.1016/j.str.2007.07.008</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Bacteriophage phiKZ</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Bacteriophage phiKZ</name>
                <oligomeric_state>one</oligomeric_state>
                <number_unique_components>1</number_unique_components>
            </sample_supramolecule>
            <virus_supramolecule supramolecule_id="1">
                <name>Pseudomonas phage phiKZ</name>
                <sci_species_name ncbi="169683">Pseudomonas phage phiKZ</sci_species_name>
                <natural_host database="NCBI">
                    <organism ncbi="287">Pseudomonas aeruginosa</organism>
                    <synonym_organism>BACTERIA(EUBACTERIA)</synonym_organism>
                </natural_host>
                <host_system database="NCBI" />
                <virus_type>VIRION</virus_type>
                <virus_isolate>STRAIN</virus_isolate>
                <virus_enveloped>false</virus_enveloped>
                <virus_empty>false</virus_empty>
            </virus_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>singleParticle</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <single_particle_preparation preparation_id="1">
                    <buffer>
                        <ph>7.5</ph>
                        <details>50 mM tris-Acetate-EDTA buffer (pH 7.5)</details>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">40</chamber_humidity>
                        <instrument>HOMEMADE PLUNGER</instrument>
                        <details>Vitrification instrument: in house manufactured</details>
                        <method>hand blot 3 seconds, plugging during blot</method>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI/PHILIPS CM300FEG/T</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">300</acceleration_voltage>
                    <nominal_cs units="mm">2.0</nominal_cs>
                    <nominal_defocus_min units="&#181;m">0.9</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">3.2</nominal_defocus_max>
                    <nominal_magnification>33000.0</nominal_magnification>
                    <calibrated_magnification>33200.0</calibrated_magnification>
                    <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
                    <alignment_procedure>
                        <legacy>
                            <astigmatism>live fft</astigmatism>
                        </legacy>
                    </alignment_procedure>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="FILM">KODAK SO-163 FILM</film_or_detector_model>
                            <digitization_details>
                                <scanner>ZEISS SCAI</scanner>
                                <sampling_interval units="&#181;m">7</sampling_interval>
                            </digitization_details>
                            <number_real_images>112</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                            <bits_per_pixel>8.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                    <specimen_holder>na</specimen_holder>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <final_reconstruction>
                    <resolution res_type="BY AUTHOR" units="&#8491;">28.0</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <details>This is a model of the phiKZ virion based on the previously deposited reconstructions of the phiKZ capsid and the tail part.</details>
                </final_reconstruction>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="50626">
        <file>emd_1415.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>180</col>
            <row>180</row>
            <sec>400</sec>
        </dimensions>
        <origin>
            <col>-90</col>
            <row>-90</row>
            <sec>-200</sec>
        </origin>
        <spacing>
            <x>180</x>
            <y>180</y>
            <z>400</z>
        </spacing>
        <cell>
            <a units="&#8491;">1527.26</a>
            <b units="&#8491;">1527.26</b>
            <c units="&#8491;">3393.92</c>
            <alpha units="deg">90</alpha>
            <beta units="deg">90</beta>
            <gamma units="deg">90</gamma>
        </cell>
        <axis_order>
            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-0.598439</minimum>
            <maximum>1.00275</maximum>
            <average>0.0350662</average>
            <std>0.121433</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">8.4848</x>
            <y units="&#8491;">8.4848</y>
            <z units="&#8491;">8.4848</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.303</level>
            </contour>
        </contour_list>
        <annotation_details>This is a 3D model of the bacteriophage phiKZ
      based on the previously deposited reconstructions of the
      capsid       (EMD-1392) and the tail (EMD-1393)</annotation_details>
        <details>::::EMDATABANK.org::::EMD-1415::::</details>
    </map>
</emd>